GgaINT1017195 @ galGal4
Intron Retention
Gene
ENSGALG00000010258 | LTBP2
Description
latent transforming growth factor beta binding protein 2 [Source:HGNC Symbol;Acc:HGNC:6715]
Coordinates
chr5:37216046-37216623:-
Coord C1 exon
chr5:37216465-37216623
Coord A exon
chr5:37216238-37216464
Coord C2 exon
chr5:37216046-37216237
Length
227 bp
Sequences
Splice sites
5' ss Seq
TAGGGCAGG
5' ss Score
-3.58
3' ss Seq
CCTGTTCCACTGTCTTCTAGAGG
3' ss Score
9
Exon sequences
Seq C1 exon
ATGTGAACGAGTGTGAGCTAATGGTGGCCGTGTGTGGGACCGCACTCTGTGAGAACGTGGAGGGATCATTCCTGTGCCTGTGCCCCAGCGACCATGAGGAGTACGACACAGAGGCAGGGCAGTGTCGGCCACGGGCAGCCGTGGGTGAGAAGCAACTAG
Seq A exon
GGCAGGAGTGTGGTGGTGATGGCTGGGGTGGGGAGAGCTGAGGAGGCTGCAGGAGGTGCCTGGGCTGTAAGAGCTCATGCAGGTATGGGAGAGCCTTCTTCTGGGGAGAACCAAGGATCGTGAAAACGAGAAGGCTATTGGTGGGCCTGCTCTGGGACCTTGTGGCTGGGGGGTACTGTGCTGAAGCCTCAAGGGCCCCATCCTGTTCCTGTTCCACTGTCTTCTAG
Seq C2 exon
AGGGCCCTGAGAGACACACAGCCCAACCCTCTGACAGCATGGAGCGCAAGCAGTGCTACTACCACATCAGCGACGTTCGCCTGTGTGACAGCGTCCTGGCCAAGAACGTCACGAAGCAGGAGTGCTGCTGCACCGTGGGGGCAGCCTGGGGTGACAACTGTGAGACCTACCCCTGCCCCATCTTGGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010258:ENSGALT00000016690:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.037 A=NA C2=0.123
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=77.8)
A:
NA
C2:
PF0068312=TB=PU(86.4=58.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACTCTGTGAGAACGTGGAG
R:
GCAGGGGTAGGTCTCACAGTT
Band lengths:
294-521
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]